Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 387 of 444
Found at i:112219897 original size:29 final size:29
Alignment explanation
Indices: 112219858--112219936 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
112219848 CTTAATAATC
*
112219858 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
112219888 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
112219917 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
112219937 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:112228092 original size:18 final size:18
Alignment explanation
Indices: 112228071--112228115 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
112228061 AATCTCAATC
112228071 TCTTTTTCAACTTT-TTTT
1 TCTTTTTCAA-TTTCTTTT
*
112228089 TCTTTTTCGATTTCTTTT
1 TCTTTTTCAATTTCTTTT
112228107 TCTTTTTCA
1 TCTTTTTCA
112228116 CATGCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (18 bp):
TCTTTTTCAATTTCTTTT
Found at i:112228266 original size:31 final size:31
Alignment explanation
Indices: 112228223--112228294 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
112228213 TACGATCTTC
* *
112228223 TCTTCGAG-ATTGATTTTTAATGGATTAATA
1 TCTTAGAGTATTGATTCTTAATGGATTAATA
112228253 TCTTAGAGTATTGATTCTTAATGGATTAATA
1 TCTTAGAGTATTGATTCTTAATGGATTAATA
*
112228284 TCTTGGAGTAT
1 TCTTAGAGTAT
112228295 ACATAGAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 7 0.18
31 31 0.82
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (31 bp):
TCTTAGAGTATTGATTCTTAATGGATTAATA
Found at i:112229336 original size:11 final size:12
Alignment explanation
Indices: 112229307--112229339 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
112229297 ATTCACGAAT
112229307 ATTTTTATTTTGA
1 ATTTTT-TTTTGA
112229320 ATTTTTTTTTGA
1 ATTTTTTTTTGA
112229332 ATTTTTTT
1 ATTTTTTT
112229340 CAAATACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
ATTTTTTTTTGA
Found at i:112230657 original size:52 final size:49
Alignment explanation
Indices: 112230600--112230719 Score: 150
Period size: 50 Copynumber: 2.4 Consensus size: 49
112230590 ATGAACAAAT
* * * *
112230600 GAGTTACTTAATGCATGAATTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGAA-GAATTT-ATGATGCAAA-ATTAACTAACATGA
* *
112230652 GAGTTACATAATGCATGTCAGAATTTATGATGCAAAATTAACTTACATGA
1 GAGTTACATAATGCATG-AAGAATTTATGATGCAAAATTAACTAACATGA
112230702 GAGTTACATAATGCATGA
1 GAGTTACATAATGCATGA
112230720 CTTTATTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 28 0.47
51 10 0.17
52 21 0.35
53 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (49 bp):
GAGTTACATAATGCATGAAGAATTTATGATGCAAAATTAACTAACATGA
Found at i:112230710 original size:50 final size:52
Alignment explanation
Indices: 112230621--112230718 Score: 155
Period size: 50 Copynumber: 1.9 Consensus size: 52
112230611 TGCATGAATT
* *
112230621 AATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGTCAG
1 AATTTAATGATGCAAACATTAACTAACATGAGAGTTACATAATGCATGTCAG
*
112230673 AATTT-ATGATGCAAA-ATTAACTTACATGAGAGTTACATAATGCATG
1 AATTTAATGATGCAAACATTAACTAACATGAGAGTTACATAATGCATG
112230719 ACTTTATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 28 0.65
51 10 0.23
52 5 0.12
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (52 bp):
AATTTAATGATGCAAACATTAACTAACATGAGAGTTACATAATGCATGTCAG
Found at i:112230798 original size:39 final size:39
Alignment explanation
Indices: 112230739--112230815 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
112230729 ATACAGAACA
*
112230739 CATATTAATGATGTTCAAACTATGACATAATTAAAGACT
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
112230778 CATACTAATGATGTTCAAACTATGACATAATTAAAGAC
1 CATACTAATGATGTTCAAACTATGACATAATTAAAGAC
112230816 AGAAACTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.31
Consensus pattern (39 bp):
CATACTAATGATGTTCAAACTATGACATAATTAAAGACT
Found at i:112230824 original size:39 final size:39
Alignment explanation
Indices: 112230744--112230824 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
112230734 GAACACATAT
* *
112230744 TAATGATGTTCAAACTATGACATAATTAAAGACTCATAC
1 TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
*
112230783 TAATGATGTTCAAACTATGACATAATTAAAGACAGAAAC
1 TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
112230822 TAA
1 TAA
112230825 AATAACTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (39 bp):
TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
Found at i:112232042 original size:10 final size:11
Alignment explanation
Indices: 112232021--112232052 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
112232011 TCGCATTTCA
112232021 CATTTCCATTT
1 CATTTCCATTT
112232032 CATTT-CATTT
1 CATTTCCATTT
112232042 CATTTCCATTT
1 CATTTCCATTT
112232053 ATCCAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (11 bp):
CATTTCCATTT
Found at i:112232544 original size:9 final size:9
Alignment explanation
Indices: 112232530--112232563 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
112232520 AATGGATTAA
*
112232530 CAATTTATG
1 CAATTTATT
*
112232539 CAATTTTTT
1 CAATTTATT
112232548 CAATTTATT
1 CAATTTATT
112232557 CAATTTA
1 CAATTTA
112232564 GTCCCTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (9 bp):
CAATTTATT
Found at i:112237808 original size:2 final size:2
Alignment explanation
Indices: 112237801--112237839 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
112237791 TACTTCATCC
112237801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112237840 GCTTAATTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112239272 original size:29 final size:29
Alignment explanation
Indices: 112239230--112239343 Score: 122
Period size: 29 Copynumber: 3.9 Consensus size: 29
112239220 GTGTGCTAAA
*
112239230 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
112239259 CGATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCA-TATT
* * **
112239289 CAATGGTTGTCACCATCCCTTTTCATAATT
1 CGATGGTCGAAACCATCCCTTTTCAT-ATT
* * *
112239319 -GATAGCCGAAACTATCCCTTTTCAT
1 CGATGGTCGAAACCATCCCTTTTCAT
112239344 TGGTCGATGA
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
29 43 0.62
30 26 0.38
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.36
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:112239304 original size:30 final size:30
Alignment explanation
Indices: 112239232--112239314 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
112239222 GTGCTAAACG
* *
112239232 ATGGTTGAAACCATCCCTTTTCA-TATTCG
1 ATGGTTGAAACCATCCCTTTTCATTAATCA
*
112239261 ATGGTCGAAACCATCCCTTTTCATTAATCA
1 ATGGTTGAAACCATCCCTTTTCATTAATCA
**
112239291 ATGGTTGTCACCATCCCTTTTCAT
1 ATGGTTGAAACCATCCCTTTTCAT
112239315 AATTGATAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 22 0.47
30 25 0.53
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (30 bp):
ATGGTTGAAACCATCCCTTTTCATTAATCA
Found at i:112239305 original size:59 final size:59
Alignment explanation
Indices: 112239232--112239344 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 59
112239222 GTGCTAAACG
* *
112239232 ATGGTTGAAACCATCCCTTTTCAT-ATTCGATGGTCGAAACCATCCCTTTTCATTAATCA
1 ATGGTTGAAACCATCCCTTTTCATAATT-GATAGCCGAAACCATCCCTTTTCATTAATCA
** *
112239291 ATGGTTGTCACCATCCCTTTTCATAATTGATAGCCGAAACTATCCCTTTTCATT
1 ATGGTTGAAACCATCCCTTTTCATAATTGATAGCCGAAACCATCCCTTTTCATT
112239345 GGTCGATGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 45 0.94
60 3 0.06
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.37
Consensus pattern (59 bp):
ATGGTTGAAACCATCCCTTTTCATAATTGATAGCCGAAACCATCCCTTTTCATTAATCA
Found at i:112240823 original size:48 final size:47
Alignment explanation
Indices: 112240749--112241014 Score: 161
Period size: 48 Copynumber: 5.6 Consensus size: 47
112240739 AGATCCCGTA
* * * * * *
112240749 TAAGATCATATCTGTGATATGGCATTGGCATCAATATATGACCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATC-ATATGTGAGCCCATG
* * * *
112240797 TAAGACCATGTCTGGGACATGGCATTGACATCGTTATGTGATCCCATA
1 TAAGACCATGTCTGGGACATGGCATTGGCATC-ATATGTGAGCCCATG
* * * * **
112240845 TAAAACCATGTCCGGGACATGGCAGTGGCATC-TATATGAGTACATTGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCATATGTGAGCCCA---TG
* * * **
112240894 TAAGACCATAG-CTGGG-CTATCGG--TTCG-AT-ATGTGTGATCCCACA
1 TAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATCATATGTGAGCCCATG
* *
112240938 CAAGACCATGTCTGGGACATGGCATTGGCATAGATATGTG-GCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCAT-CATATGTGAGCCCATG
* * *
112240985 TAAGACCATATCCGGGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
112241015 CCCTACTATG
Statistics
Matches: 164, Mismatches: 40, Indels: 29
0.70 0.17 0.12
Matches are distributed among these distances:
43 3 0.02
44 15 0.09
45 4 0.02
46 10 0.06
47 39 0.24
48 75 0.46
49 15 0.09
50 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATCATATGTGAGCCCATG
Found at i:112244975 original size:27 final size:27
Alignment explanation
Indices: 112244936--112245028 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
112244926 ACTGATTTCG
*
112244936 CACACTTAGTGCTCAGAAATTAATTCA
1 CACACATAGTGCTCAGAAATTAATTCA
* * * * *
112244963 CATACATAGTGCT--TAAATCCAACTCG
1 CACACATAGTGCTCAGAAAT-TAATTCA
* *
112244989 CACACTTAATGCTCAGAAATTAATTCA
1 CACACATAGTGCTCAGAAATTAATTCA
*
112245016 TACACATAGTGCT
1 CACACATAGTGCT
112245029 TAAATCCAAC
Statistics
Matches: 47, Mismatches: 16, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
25 4 0.09
26 14 0.30
27 25 0.53
28 4 0.09
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (27 bp):
CACACATAGTGCTCAGAAATTAATTCA
Found at i:112245046 original size:26 final size:26
Alignment explanation
Indices: 112244966--112245054 Score: 67
Period size: 26 Copynumber: 3.4 Consensus size: 26
112244956 TAATTCACAT
*
112244966 ACATAGTGCTTAAATCCAACTCGCAC
1 ACATAGTGCTTAAATCCAACTTGCAC
* * * *
112244992 ACTTAATGCTCAGAAAT-TAA-TT-CATAC
1 ACATAGTGCT--TAAATCCAACTTGC--AC
112245019 ACATAGTGCTTAAATCCAACTTGCAC
1 ACATAGTGCTTAAATCCAACTTGCAC
*
112245045 ACTTAGTGCT
1 ACATAGTGCT
112245055 CAGTATCAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 5 0.11
26 22 0.48
27 14 0.30
28 5 0.11
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (26 bp):
ACATAGTGCTTAAATCCAACTTGCAC
Found at i:112245080 original size:53 final size:53
Alignment explanation
Indices: 112244933--112245057 Score: 214
Period size: 53 Copynumber: 2.4 Consensus size: 53
112244923 GTAACTGATT
*
112244933 TCGCACACTTAGTGCTCAGAAATTAATTCACATACATAGTGCTTAAATCCAAC
1 TCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAAC
* *
112244986 TCGCACACTTAATGCTCAGAAATTAATTCATACACATAGTGCTTAAATCCAAC
1 TCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAAC
*
112245039 TTGCACACTTAGTGCTCAG
1 TCGCACACTTAGTGCTCAG
112245058 TATCAAATTC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 67 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (53 bp):
TCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAAC
Found at i:112248916 original size:24 final size:24
Alignment explanation
Indices: 112248888--112248935 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
112248878 CATTTTAGAA
112248888 GGTGATTATTTTTCATATTTTTTT
1 GGTGATTATTTTTCATATTTTTTT
112248912 GGTGATTATTTTTCATATTTTTTT
1 GGTGATTATTTTTCATATTTTTTT
112248936 TCTTTTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.12, T:0.67
Consensus pattern (24 bp):
GGTGATTATTTTTCATATTTTTTT
Found at i:112249714 original size:21 final size:22
Alignment explanation
Indices: 112249668--112249753 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 22
112249658 TGAATATACG
112249668 TATTATATATTTTATAATTATT
1 TATTATATATTTTATAATTATT
112249690 TATT-TATATTTTATTATATTATAT
1 TATTATATATTTTA-TA-ATTAT-T
* * *
112249714 TACTTCATATCTTTCTATTATCATAT
1 TA-TT-ATATATTT-TATAATTAT-T
*
112249740 TAATATATATTTTA
1 TATTATATATTTTA
112249754 ACATATATCA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
21 9 0.17
22 6 0.12
23 7 0.13
24 10 0.19
25 3 0.06
26 8 0.15
27 7 0.13
28 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATATATTTTATAATTATT
Found at i:112249828 original size:18 final size:18
Alignment explanation
Indices: 112249805--112249905 Score: 52
Period size: 20 Copynumber: 5.6 Consensus size: 18
112249795 CGCATAATGT
112249805 TTATATATTTTTATATTA
1 TTATATATTTTTATATTA
* *
112249823 TTATATTATTTTACATTTTAA
1 TTATA-TATTTT-TATATT-A
**
112249844 CAATATATTATTTCATATTA
1 TTATATATT-TTT-ATATTA
112249864 TTAT-TA---TTAT-TTA
1 TTATATATTTTTATATTA
*
112249877 TTATATATTTTATATGTATA
1 TTATATATTTT-TATAT-TA
112249897 TTAT-TATTT
1 TTATATATTT
112249906 ACAATATTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 23
0.67 0.09 0.24
Matches are distributed among these distances:
13 7 0.11
14 4 0.06
15 2 0.03
17 1 0.02
18 8 0.13
19 14 0.22
20 17 0.27
21 10 0.16
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (18 bp):
TTATATATTTTTATATTA
Found at i:112249899 original size:30 final size:31
Alignment explanation
Indices: 112249847--112249925 Score: 99
Period size: 30 Copynumber: 2.5 Consensus size: 31
112249837 ATTTTAACAA
112249847 TATATTATTTCATATTATTATTATTATTTAT
1 TATATTATTTCATATTATTATTATTATTTAT
* *
112249878 TATA-TATTTTATATGTA-TATTATTATTTAC
1 TATATTATTTCATAT-TATTATTATTATTTAT
*
112249908 AATATTATTTTCATATTA
1 TATATTA-TTTCATATTA
112249926 AATTGATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 24 0.59
31 10 0.24
32 7 0.17
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (31 bp):
TATATTATTTCATATTATTATTATTATTTAT
Found at i:112260934 original size:6 final size:6
Alignment explanation
Indices: 112260923--112260949 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
112260913 GAGATTTCAA
112260923 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
112260950 CAGAGAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:112262240 original size:206 final size:206
Alignment explanation
Indices: 112261860--112262407 Score: 799
Period size: 206 Copynumber: 2.7 Consensus size: 206
112261850 GGCTGAAGTA
* * * *
112261860 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAAACGCAGACATAGATGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
* * *
112261925 TTTCACGTGTTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * * * ** *
112261990 TCGAAGTCTGGCGTCTCCATATTTGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGATGTT
131 TCGAAGTCTGGCATCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGAT
*
112262055 TATACTGAAGC
196 TAGACTGAAGC
* * * * * *
112262066 AGATCTAAGATGATTTGGCATCCTTATACATACGAGGAGCAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
112262131 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* *
112262196 TCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTTCAGATGAT
131 TCGAAGTCTGGCATCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGAT
112262261 TAGACTGAAGC
196 TAGACTGAAGC
* * * * *
112262272 AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCAAAGACATTGCTGCTTTGGT
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
** * *
112262337 TTTCGTGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
*
112262402 ACGAAG
131 TCGAAG
112262408 AAGCAGATTT
Statistics
Matches: 303, Mismatches: 39, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
206 303 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (206 bp):
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGTCTGGCATCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGAT
TAGACTGAAGC
Found at i:112263952 original size:21 final size:22
Alignment explanation
Indices: 112263906--112263991 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 22
112263896 TGAATATACG
112263906 TATTATATATTTTATAATTATT
1 TATTATATATTTTATAATTATT
112263928 TATT-TATATTTTATTATATTATAT
1 TATTATATATTTTA-TA-ATTAT-T
* * *
112263952 TACTTCATATCTTTCTATTATCATAT
1 TA-TT-ATATATTT-TATAATTAT-T
*
112263978 TAATATATATTTTA
1 TATTATATATTTTA
112263992 ACATATATCA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
21 9 0.17
22 6 0.12
23 7 0.13
24 10 0.19
25 3 0.06
26 8 0.15
27 7 0.13
28 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATATATTTTATAATTATT
Found at i:112271014 original size:37 final size:37
Alignment explanation
Indices: 112270961--112271063 Score: 163
Period size: 37 Copynumber: 2.8 Consensus size: 37
112270951 CGAATAGTAC
*
112270961 CCACACGTAGTTATCGGGTCTTACCCGGACGA-AATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAC-ATAATCT
* *
112270998 CCACACGTAGTCATCGGGACTTACCGGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
112271035 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
112271064 ATATATTTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 1 0.02
37 59 0.98
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:112271262 original size:48 final size:48
Alignment explanation
Indices: 112271204--112271973 Score: 1243
Period size: 48 Copynumber: 16.0 Consensus size: 48
112271194 ATATACACAC
* * *
112271204 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
112271252 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
112271300 ATCTCATACATATTTCACTCTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
112271348 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
112271396 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
112271444 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
112271492 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
112271540 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
112271588 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATAAAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
112271636 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
112271684 ATCTCATACATATTTCAGATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
112271732 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
112271780 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * * *
112271828 ATCTCATACATATTTCATATTAGTCATTTGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
112271876 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
112271924 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
112271972 AT
1 AT
112271974 ATATTTATCT
Statistics
Matches: 665, Mismatches: 57, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 665 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:112273177 original size:2 final size:2
Alignment explanation
Indices: 112273138--112273168 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
112273128 TACATAAGGC
112273138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112273169 CCTATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112280525 original size:16 final size:17
Alignment explanation
Indices: 112280488--112280531 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
112280478 TTTTTTTTAA
112280488 ATTTAACTTAAAAATATT
1 ATTTAACTT-AAAATATT
*
112280506 ATTTAACTTAAAGT-TT
1 ATTTAACTTAAAATATT
*
112280522 ATTTCACTTA
1 ATTTAACTTA
112280532 GGTGGATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.46
17 4 0.17
18 9 0.38
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (17 bp):
ATTTAACTTAAAATATT
Found at i:112288757 original size:16 final size:18
Alignment explanation
Indices: 112288723--112288759 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
112288713 AAATAATGAA
112288723 AAATAATATTATTTCAATT
1 AAATAATA-TATTTCAATT
112288742 AAATAATA-ATTT-AATT
1 AAATAATATATTTCAATT
112288758 AA
1 AA
112288760 TTATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
19 8 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATAATATATTTCAATT
Found at i:112288767 original size:16 final size:17
Alignment explanation
Indices: 112288727--112288768 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
112288717 AATGAAAAAT
112288727 AATATT-ATTTCAATTA
1 AATATTAATTTCAATTA
*
112288743 AATAATAATTT-AATTA
1 AATATTAATTTCAATTA
*
112288759 ATTATTAATT
1 AATATTAATT
112288769 ATTCCAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTAATTTCAATTA
Found at i:112290957 original size:30 final size:30
Alignment explanation
Indices: 112290923--112290979 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
112290913 TTATATGGAA
112290923 GGCTTAATTGATTTTATATTATTTTACGAG
1 GGCTTAATTGATTTTATATTATTTTACGAG
*
112290953 GGCTTAATTGATTTTTTATTATTTTAC
1 GGCTTAATTGATTTTATATTATTTTAC
112290980 TTGACTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (30 bp):
GGCTTAATTGATTTTATATTATTTTACGAG
Found at i:112290999 original size:29 final size:29
Alignment explanation
Indices: 112290925--112290999 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
112290915 ATATGGAAGG
*
112290925 CTTAATTGATTTTATATTATTTTACGAGGG
1 CTTAATTGATTTT-TATTATTTTACGAGGA
**
112290955 CTTAATTGATTTTTTATTATTTTAC-TTGA
1 CTTAATTGA-TTTTTATTATTTTACGAGGA
112290984 CTTAATTGATTATTTA
1 CTTAATTGATT-TTTA
112291000 AGTTAATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 2 0.05
29 14 0.35
30 20 0.50
31 4 0.10
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.56
Consensus pattern (29 bp):
CTTAATTGATTTTTATTATTTTACGAGGA
Found at i:112291326 original size:18 final size:20
Alignment explanation
Indices: 112291293--112291333 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
112291283 TTTTGTAAAC
*
112291293 TTTTGTTAATTTTTAATCAT
1 TTTTGTTAATTTTTAATAAT
112291313 TTTTG-TAA-TTTTAATAAT
1 TTTTGTTAATTTTTAATAAT
112291331 TTT
1 TTT
112291334 CTATGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 3 0.15
20 5 0.25
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTGTTAATTTTTAATAAT
Found at i:112291649 original size:21 final size:20
Alignment explanation
Indices: 112291611--112291649 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
112291601 AAAGATTTAA
*
112291611 AAGGTTTATTTATATTATCC
1 AAGGTTTAGTTATATTATCC
*
112291631 AAGGTTATAGTTATTTTAT
1 AAGGTT-TAGTTATATTAT
112291650 TAGCCTTGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (20 bp):
AAGGTTTAGTTATATTATCC
Found at i:112292562 original size:26 final size:29
Alignment explanation
Indices: 112292524--112292576 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
112292514 ACTCTCAAAA
112292524 TTCTCTCAA-TTTTCTATTA-AATTATAT
1 TTCTCTCAATTTTTCTATTAGAATTATAT
*
112292551 TTCTCT-AATTTTTTTATTAGAATTAT
1 TTCTCTCAATTTTTCTATTAGAATTAT
112292577 CTTAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.09
27 15 0.65
28 6 0.26
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.58
Consensus pattern (29 bp):
TTCTCTCAATTTTTCTATTAGAATTATAT
Found at i:112295415 original size:35 final size:35
Alignment explanation
Indices: 112295376--112295446 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
112295366 CATATATATA
112295376 TGTAAGCCCATTCGTGATATTACCTTAGGACTATG
1 TGTAAGCCCATTCGTGATATTACCTTAGGACTATG
112295411 TGTAAGCCCATTCGTGATATTACCTTAGGACTATG
1 TGTAAGCCCATTCGTGATATTACCTTAGGACTATG
112295446 T
1 T
112295447 ATATATAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (35 bp):
TGTAAGCCCATTCGTGATATTACCTTAGGACTATG
Found at i:112296013 original size:29 final size:29
Alignment explanation
Indices: 112295978--112296051 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
112295968 GTTGTGAGAT
* *
112295978 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
112296007 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
112296036 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
112296052 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:112301851 original size:30 final size:30
Alignment explanation
Indices: 112301793--112301851 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
112301783 ATTTTCGAGC
* * **
112301793 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATAGTCATTTTACCAAAGT
112301823 CTAGGGGCAAAATAGTCATTTTACCAAAG
1 CTAGGGGCAAAATAGTCATTTTACCAAAG
112301852 ATATGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATAGTCATTTTACCAAAGT
Found at i:112302327 original size:46 final size:45
Alignment explanation
Indices: 112302196--112302409 Score: 190
Period size: 46 Copynumber: 4.6 Consensus size: 45
112302186 TGTGTGAGCT
*
112302196 AGTGTAAGACATG-CTTGGGACATGCATCGGCCACATT-ATGA-G-AGCC
1 AGTGTAAGACATGTC-TGGGACATGCATCAG---CATTGA-GACGAAGCC
*
112302242 AGTTTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACG-AGCGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATTGAGACGAAGC-C
* *
112302289 TAGTGTAAGACATGTCTGAGACATGCATCAGCCTTGAGACGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACG-AAGCC
* * * *
112302336 AGTGTAAGACATGTCTGGGACATGCATCAGC-TACGAGATG-TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCAT-TGAGACGAAGCC
112302380 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
112302410 GACATAGATA
Statistics
Matches: 146, Mismatches: 10, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
44 11 0.08
45 21 0.14
46 69 0.47
47 27 0.18
48 18 0.12
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGAAGCC
Found at i:112307160 original size:88 final size:88
Alignment explanation
Indices: 112307068--112307230 Score: 195
Period size: 88 Copynumber: 1.9 Consensus size: 88
112307058 CAATTTTTAT
* * * * *
112307068 ATTTTAGAGTCTGAATTTTTTTAGT-TAAATC-AAGTCTTAAACTTGACAATCATTTTTACATTA
1 ATTTTAGAGCCTAAACTTTTTT-GTCTAAATCAAACT-TTAAACTTGACAATCATTCTTACATTA
112307131 AGACCTGAATTTGGTAACTTTGTCA
64 AGACCTGAATTTGGTAACTTTGTCA
* * * **
112307156 ATTTTAGAGCCTAAACTTTTTTGTCTAAATTAAACTTTGAACTTGTCAATTGTTCTTACATTAAG
1 ATTTTAGAGCCTAAACTTTTTTGTCTAAATCAAACTTTAAACTTGACAATCATTCTTACATTAAG
*
112307221 ACTTGAATTT
66 ACCTGAATTT
112307231 TAGGATTTTC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
87 2 0.03
88 57 0.92
89 3 0.05
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (88 bp):
ATTTTAGAGCCTAAACTTTTTTGTCTAAATCAAACTTTAAACTTGACAATCATTCTTACATTAAG
ACCTGAATTTGGTAACTTTGTCA
Found at i:112311915 original size:18 final size:21
Alignment explanation
Indices: 112311892--112311932 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
112311882 TGCCTCAATC
112311892 ATTTT-AA-AAAAT-CATAAA
1 ATTTTAAACAAAATACATAAA
112311910 ATTTTAAACAAAATACATAAA
1 ATTTTAAACAAAATACATAAA
112311931 AT
1 AT
112311933 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 2 0.10
20 5 0.25
21 8 0.40
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTTTAAACAAAATACATAAA
Found at i:112313572 original size:25 final size:26
Alignment explanation
Indices: 112313538--112313588 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
112313528 TTAGGTAGAT
*
112313538 GATTATTATT-ATTAAATTTTAATAA
1 GATTATTATTAAATAAATTTTAATAA
*
112313563 GATTATTATTAAATATATTTTAATAA
1 GATTATTATTAAATAAATTTTAATAA
112313589 AAATAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
GATTATTATTAAATAAATTTTAATAA
Found at i:112319753 original size:45 final size:45
Alignment explanation
Indices: 112319692--112319951 Score: 273
Period size: 45 Copynumber: 5.9 Consensus size: 45
112319682 TAGGATTTTG
*
112319692 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCTTCGAT
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* *
112319737 ATATGTGGTTTCGTGTAAGACCATGTCTGGGTCGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * *
112319782 ATATGTGATTTCGTGTAAGACTACGTTTGGGACATTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * * * * *
112319827 ATATGTGGTTACGTGTAAGACCATGTCTAGGACATCGACATTG-T
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
* *
112319871 AT-T-TGA-TTCGTGTAAGACCCTGTCTGGGACAG-TGGCAACGAT
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT
* ** * *
112319913 ATA--AGATAACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
112319952 TGTATGGTAT
Statistics
Matches: 176, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
41 25 0.14
42 8 0.05
43 25 0.14
44 3 0.02
45 115 0.65
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
Found at i:112322917 original size:24 final size:24
Alignment explanation
Indices: 112322860--112322948 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 24
112322850 CCATGTTAAC
* *
112322860 CCGCACACATAGTGCCGTATAAAT
1 CCGCACACATAGTGCCATACAAAT
* * * *
112322884 CCGTATACATAGTGCTATACAGAT
1 CCGCACACATAGTGCCATACAAAT
* *
112322908 CTGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATACAAAT
112322932 CCGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
112322949 AGGTCATTTC
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (24 bp):
CCGCACACATAGTGCCATACAAAT
Found at i:112330333 original size:24 final size:24
Alignment explanation
Indices: 112330232--112330342 Score: 73
Period size: 24 Copynumber: 4.6 Consensus size: 24
112330222 AAGGAAATTT
*
112330232 GCACCCATAGTGCCATGTTAACCC
1 GCACACATAGTGCCATGTTAACCC
* * ** *
112330256 GCACACAAAGTGCCTTAATAATCC
1 GCACACATAGTGCCATGTTAACCC
** * * *
112330280 ATACACATA-TCGACGAT-TCAAATCC
1 GCACACATAGT-G-CCATGT-TAACCC
112330305 GCACACATAGTGCCATGTTAACCC
1 GCACACATAGTGCCATGTTAACCC
*
112330329 GCACACAAAGTGCC
1 GCACACATAGTGCC
112330343 TTAATAATCC
Statistics
Matches: 63, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
23 1 0.02
24 45 0.71
25 16 0.25
26 1 0.02
ACGTcount: A:0.33, C:0.32, G:0.14, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATGTTAACCC
Found at i:112330356 original size:73 final size:73
Alignment explanation
Indices: 112330232--112330391 Score: 293
Period size: 73 Copynumber: 2.2 Consensus size: 73
112330222 AAGGAAATTT
* *
112330232 GCACCCATAGTGCCATGTTAACCCGCACACAAAGTGCCTTAATAATCCATACACATATCGACGAT
1 GCACACATAGTGCCATGTTAACCCGCACACAAAGTGCCTTAATAATCCATACACATATCGACAAT
112330297 TCAAATCC
66 TCAAATCC
*
112330305 GCACACATAGTGCCATGTTAACCCGCACACAAAGTGCCTTAATAATCCATACACTTATCGACAAT
1 GCACACATAGTGCCATGTTAACCCGCACACAAAGTGCCTTAATAATCCATACACATATCGACAAT
112330370 TCAAATCC
66 TCAAATCC
112330378 GCACACATAGTGCC
1 GCACACATAGTGCC
112330392 GTATAAATCC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 84 1.00
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.22
Consensus pattern (73 bp):
GCACACATAGTGCCATGTTAACCCGCACACAAAGTGCCTTAATAATCCATACACATATCGACAAT
TCAAATCC
Found at i:112330401 original size:49 final size:48
Alignment explanation
Indices: 112330327--112330439 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 48
112330317 CCATGTTAAC
* * * * *
112330327 CCGCACACAAAGTGCCTTAATAATCCATACACTTA-TCGACAATTCAAAT
1 CCGCACACATAGTGCCGTAATAATCCAAACACATAGT-G-CAATACAAAT
* *
112330376 CCGCACACATAGTGCCGT-ATAAATCCAAATACATAGTGCTATACAAAT
1 CCGCACACATAGTGCCGTAAT-AATCCAAACACATAGTGCAATACAAAT
112330424 CCGCACACATAGTGCC
1 CCGCACACATAGTGCC
112330440 ATTCAAATCC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
48 26 0.47
49 28 0.51
50 1 0.02
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (48 bp):
CCGCACACATAGTGCCGTAATAATCCAAACACATAGTGCAATACAAAT
Found at i:112330414 original size:73 final size:73
Alignment explanation
Indices: 112330232--112330464 Score: 249
Period size: 73 Copynumber: 3.2 Consensus size: 73
112330222 AAGGAAATTT
* * * ** *
112330232 GCACCCATAGTGCCATGTTAACCCGCACACAAAGTGCCTTAATAATCCATACACATATCGACGAT
1 GCACACATAGTGCCATATAAACCCAAACACAAAGTGCCTTAATAATCCATACACATATCGACAAT
112330297 TCAAATCC
66 TCAAATCC
* * ** *
112330305 GCACACATAGTGCCATGTTAACCCGCACACAAAGTGCCTTAATAATCCATACACTTATCGACAAT
1 GCACACATAGTGCCATATAAACCCAAACACAAAGTGCCTTAATAATCCATACACATATCGACAAT
112330370 TCAAATCC
66 TCAAATCC
* * * * **
112330378 GCACACATAGTGCCGTATAAATCCAAATACATAGTG-CTATACA-AATCCGCACACATAGT-G-C
1 GCACACATAGTGCCATATAAACCCAAACACAAAGTGCCT-TA-ATAATCCATACACATA-TCGAC
*
112330439 CATTCAAATCC
63 AATTCAAATCC
112330450 GCACACATAGTGCCA
1 GCACACATAGTGCCA
112330465 ATGTCATTTC
Statistics
Matches: 141, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
72 27 0.19
73 112 0.79
74 2 0.01
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (73 bp):
GCACACATAGTGCCATATAAACCCAAACACAAAGTGCCTTAATAATCCATACACATATCGACAAT
TCAAATCC
Found at i:112330423 original size:24 final size:24
Alignment explanation
Indices: 112330371--112330464 Score: 89
Period size: 24 Copynumber: 3.9 Consensus size: 24
112330361 ATCGACAATT
** *
112330371 CAAATCCGCACACATAGTGCCGTA
1 CAAATCCAAACACATAGTGCCATA
* * *
112330395 TAAATCCAAATACATAGTGCTATA
1 CAAATCCAAACACATAGTGCCATA
** *
112330419 CAAATCCGCACACATAGTGCCATT
1 CAAATCCAAACACATAGTGCCATA
**
112330443 CAAATCCGCACACATAGTGCCA
1 CAAATCCAAACACATAGTGCCA
112330465 ATGTCATTTC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (24 bp):
CAAATCCAAACACATAGTGCCATA
Found at i:112330458 original size:48 final size:48
Alignment explanation
Indices: 112330295--112330462 Score: 135
Period size: 48 Copynumber: 3.5 Consensus size: 48
112330285 CATATCGACG
* * *** * *
112330295 ATTCAAATCCGCACACATAGTGCCATGTTAACCCGCACACAAAGTGCC
1 ATTCAAATCCACACACATAGTGCAATACAAATCCGCACACATAGTGCC
* * * *
112330343 -TTAATAATCCATACACTTA-TCGACAATTCAAATCCGCACACATAGTGCC
1 ATTCA-AATCCACACACATAGT-G-CAATACAAATCCGCACACATAGTGCC
* * * *
112330392 GTAT-AAATCCAAATACATAGTGCTATACAAATCCGCACACATAGTGCC
1 AT-TCAAATCCACACACATAGTGCAATACAAATCCGCACACATAGTGCC
*
112330440 ATTCAAATCCGCACACATAGTGC
1 ATTCAAATCCACACACATAGTGC
112330463 CAATGTCATT
Statistics
Matches: 94, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
47 5 0.05
48 53 0.56
49 32 0.34
50 3 0.03
51 1 0.01
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (48 bp):
ATTCAAATCCACACACATAGTGCAATACAAATCCGCACACATAGTGCC
Found at i:112331120 original size:28 final size:27
Alignment explanation
Indices: 112331104--112331157 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 27
112331094 CTTTCACTCT
112331104 TAAAACATGAAAATATAAGTCTTACCCC
1 TAAAACATGAAAATAT-AGTCTTACCCC
112331132 TAAAACATGAAAATATAAGTCTTACC
1 TAAAACATGAAAATAT-AGTCTTACC
112331158 TCCTCTCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (27 bp):
TAAAACATGAAAATATAGTCTTACCCC
Found at i:112337834 original size:45 final size:45
Alignment explanation
Indices: 112337779--112337871 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 45
112337769 TAGGATTCCG
* * *
112337779 ATATGTGATTTCATGAAAGATCACGTCTGGGAAGTTGGTATCGAT
1 ATATGTGATTTCATGAAAGACCACGTCTAGGAAGTTGGCATCGAT
* * *
112337824 ATATGTGATTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGATTTCATGAAAGACCACGTCTAGGAAGTTGGCATCGAT
112337869 ATA
1 ATA
112337872 CGTGGTTACG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (45 bp):
ATATGTGATTTCATGAAAGACCACGTCTAGGAAGTTGGCATCGAT
Found at i:112337884 original size:45 final size:45
Alignment explanation
Indices: 112337795--112337990 Score: 172
Period size: 45 Copynumber: 4.5 Consensus size: 45
112337785 GATTTCATGA
* * * * *
112337795 AAGATCACGTCTGGGAAGTTGGTATCGATATATGTGATTTCGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGATATACGTGATTACGTGT
* *
112337840 AAGACCACGTCTAGGACGTTGGCATCGATATACGTGGTTACGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGATATACGTGATTACGTGT
* * * *
112337885 AAGACCATGTCTGGGACATCGGCATC-ATATTC--GATT-CGTGT
1 AAGACCACGTCTGGGACGTTGGCATCGATATACGTGATTACGTGT
** * * * *
112337926 AAGACCTTGTTTGGGACAG-TGGCATCGATAT--GAGATAACATGT
1 AAGACCACGTCTGGGAC-GTTGGCATCGATATACGTGATTACGTGT
*
112337969 AAGATCACGTCTGGGACGTTGG
1 AAGACCACGTCTGGGACGTTGG
112337991 AATTGTATGG
Statistics
Matches: 122, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
41 26 0.21
42 11 0.09
43 20 0.16
44 5 0.04
45 60 0.49
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (45 bp):
AAGACCACGTCTGGGACGTTGGCATCGATATACGTGATTACGTGT
Found at i:112343767 original size:21 final size:21
Alignment explanation
Indices: 112343742--112343783 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
112343732 AATTACATAG
112343742 AAAAATTATATCTTCAAAGCA
1 AAAAATTATATCTTCAAAGCA
112343763 AAAAATTATATCTTCAAAGCA
1 AAAAATTATATCTTCAAAGCA
112343784 CACTATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAATTATATCTTCAAAGCA
Found at i:112345022 original size:24 final size:24
Alignment explanation
Indices: 112344995--112345065 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
112344985 ATACAAGGTA
112344995 TTTATATACATTCCATATGCTAAT
1 TTTATATACATTCCATATGCTAAT
** *
112345019 TTTAGCTA-ATT-C--AT-CTAAA
1 TTTATATACATTCCATATGCTAAT
* *
112345038 TTTATGTACATTCTATATGCTAAT
1 TTTATATACATTCCATATGCTAAT
112345062 TTTA
1 TTTA
112345066 GCCTAATTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 10 0.29
20 5 0.14
22 1 0.03
23 5 0.14
24 14 0.40
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (24 bp):
TTTATATACATTCCATATGCTAAT
Found at i:112345041 original size:43 final size:44
Alignment explanation
Indices: 112344994--112345080 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 44
112344984 CATACAAGGT
112344994 ATTTATATACATTCCATATGCTAATTTTAG-CTAATTCATCTAA
1 ATTTATATACATTCCATATGCTAATTTTAGCCTAATTCATCTAA
* *
112345037 ATTTATGTACATTCTATATGCTAATTTTAGCCTAATTCATCTAA
1 ATTTATATACATTCCATATGCTAATTTTAGCCTAATTCATCTAA
112345081 CAACCAACCA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 28 0.68
44 13 0.32
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (44 bp):
ATTTATATACATTCCATATGCTAATTTTAGCCTAATTCATCTAA
Found at i:112345074 original size:24 final size:22
Alignment explanation
Indices: 112345008--112345076 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 22
112344998 ATATACATTC
112345008 CATATGCTAATTTTAGCTAATT
1 CATATGCTAATTTTAGCTAATT
*
112345030 C--AT-CTAAATTTATG-TACATT
1 CATATGCTAATTTTA-GCTA-ATT
112345050 CTATATGCTAATTTTAGCCTAATT
1 C-ATATGCTAATTTTAG-CTAATT
112345074 CAT
1 CAT
112345077 CTAACAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
19 10 0.27
20 7 0.19
22 1 0.03
23 5 0.14
24 12 0.32
25 2 0.05
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (22 bp):
CATATGCTAATTTTAGCTAATT
Found at i:112354829 original size:48 final size:48
Alignment explanation
Indices: 112354737--112354830 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
112354727 CGATGTACTC
* * *
112354737 ATATCGATGCCAATGCCATGTCCCAAACATGGCCTTATATGGGATCAT
1 ATATCGATGCCAATGCCATATCCCAAACATGGCCATATACGGGATCAT
* * * *
112354785 ATATCGATGCCTATGCCATATCCCAGATATGGTCATATACGGGATC
1 ATATCGATGCCAATGCCATATCCCAAACATGGCCATATACGGGATC
112354831 TCATCAACCC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (48 bp):
ATATCGATGCCAATGCCATATCCCAAACATGGCCATATACGGGATCAT
Found at i:112357831 original size:2 final size:2
Alignment explanation
Indices: 112357822--112357872 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
112357812 TTTACACATT
112357822 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112357863 TA TA TA TA TA
1 TA TA TA TA TA
112357873 CACACACATC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:112366321 original size:109 final size:109
Alignment explanation
Indices: 112366130--112366353 Score: 263
Period size: 109 Copynumber: 2.1 Consensus size: 109
112366120 TCATCAAATA
* * * * *
112366130 ATATAACTTATTTTAAATACGAAAAGATATTTTGGTAGTTTCCCTAATCAAGTTTGTGCTTGGTT
1 ATATAACTTATTTTAAATACGAAAAAACATTTTGGTAATTTCCCTAATCAAGTTGGTGCATGGTT
* *
112366195 TACTTGTGACACCAACTC-AGTAAGGGGTTTAAATAACAATATAG
66 AACTTGTAACACCAACTCAAGTAA-GGGTTTAAATAACAATATAG
* ** * **
112366239 ATATAACTTATTTTAAATATGAAAAAACATTTTGGTAATTTTTCTTATGGAGTTGGTGCCAT-GT
1 ATATAACTTATTTTAAATACGAAAAAACATTTTGGTAATTTCCCTAATCAAGTTGGTG-CATGGT
* * * *
112366303 TAACTTGTAACACCAACTCAATTAAGTGTTTAAATAATATTATAG
65 TAACTTGTAACACCAACTCAAGTAAGGGTTTAAATAACAATATAG
112366348 ATATAA
1 ATATAA
112366354 AAGTACGCAT
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
109 90 0.94
110 6 0.06
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (109 bp):
ATATAACTTATTTTAAATACGAAAAAACATTTTGGTAATTTCCCTAATCAAGTTGGTGCATGGTT
AACTTGTAACACCAACTCAAGTAAGGGTTTAAATAACAATATAG
Found at i:112366799 original size:2 final size:2
Alignment explanation
Indices: 112366792--112366830 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
112366782 CAAAAAGAGA
112366792 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112366831 ATTAACGGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112367344 original size:2 final size:2
Alignment explanation
Indices: 112367337--112367365 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
112367327 AAAGTAGAAG
112367337 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112367366 GATAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:112372638 original size:21 final size:21
Alignment explanation
Indices: 112372596--112372639 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
112372586 ATTACTTTAG
* * *
112372596 TAATTTATTTTTCTTGTAATT
1 TAATTTAATTTTATTATAATT
*
112372617 TAATTTAATTTTATTATTATT
1 TAATTTAATTTTATTATAATT
112372638 TA
1 TA
112372640 TTAACTTCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TAATTTAATTTTATTATAATT
Found at i:112373225 original size:167 final size:167
Alignment explanation
Indices: 112372949--112373276 Score: 620
Period size: 167 Copynumber: 2.0 Consensus size: 167
112372939 ATAGTTAGAC
112372949 CTGCTATTGCTACGAATAATTTTGAACTGAAACCTAACACAATTCAAATGATACAGCAGTTTGTT
1 CTGCTATTGCTACGAATAATTTTGAACTGAAACCTAACACAATTCAAATGATACAGCAGTTTGTT
*
112373014 CAGTTTGATGGTTTGCAGGATGAGGATCCCAACACTCACTTGGCGAATTTTTTGGAGTTTTGTGA
66 CAGTTTGATGGTTTGCAGGATGAGGATCCCAACACTCACTTGGCGAATTTTCTGGAGTTTTGTGA
*
112373079 CACTTTCAAAATTAATGGCGTTTCTGATGATTTTGAA
131 CACTTTCAAAATTAATGGCGTTTCTAATGATTTTGAA
* *
112373116 CTGCTATTGCTACGACTAATTTTGAACTGAAACCTAACACAATTCAGATGATACAGCAGTTTGTT
1 CTGCTATTGCTACGAATAATTTTGAACTGAAACCTAACACAATTCAAATGATACAGCAGTTTGTT
112373181 CAGTTTGATGGTTTGCAGGATGAGGATCCCAACACTCACTTGGCGAATTTTCTGGAGTTTTGTGA
66 CAGTTTGATGGTTTGCAGGATGAGGATCCCAACACTCACTTGGCGAATTTTCTGGAGTTTTGTGA
112373246 CACTTTCAAAATTAATGGCGTTTCTAATGAT
131 CACTTTCAAAATTAATGGCGTTTCTAATGAT
112373277 GCCATTCACT
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 157 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (167 bp):
CTGCTATTGCTACGAATAATTTTGAACTGAAACCTAACACAATTCAAATGATACAGCAGTTTGTT
CAGTTTGATGGTTTGCAGGATGAGGATCCCAACACTCACTTGGCGAATTTTCTGGAGTTTTGTGA
CACTTTCAAAATTAATGGCGTTTCTAATGATTTTGAA
Found at i:112378780 original size:17 final size:17
Alignment explanation
Indices: 112378760--112378793 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
112378750 TCTTTTATTA
112378760 AGTTTTTAAGACTCATT
1 AGTTTTTAAGACTCATT
*
112378777 AGTTTTTAAGATTCATT
1 AGTTTTTAAGACTCATT
112378794 TTTTTCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (17 bp):
AGTTTTTAAGACTCATT
Found at i:112383474 original size:24 final size:24
Alignment explanation
Indices: 112383442--112383491 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
112383432 TTTAATAACT
112383442 TAACAAATTAACCAATGGGCTAGC
1 TAACAAATTAACCAATGGGCTAGC
*
112383466 TAACAAATTGACCAATGGGCTAGC
1 TAACAAATTAACCAATGGGCTAGC
112383490 TA
1 TA
112383492 GATTAAGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (24 bp):
TAACAAATTAACCAATGGGCTAGC
Found at i:112388705 original size:55 final size:55
Alignment explanation
Indices: 112388610--112388728 Score: 132
Period size: 55 Copynumber: 2.2 Consensus size: 55
112388600 TGTAAACCCC
* * * **
112388610 ACGCCCGTGTTAATTTAACAGGTTCGACCATGGGTGTTCCACATGGGCATGTCGA
1 ACGCCCGTGCTAATTTAACAGGTTCGACCACGGGTCTTCCACACAGGCATGTCGA
* * * * *
112388665 ACGCCCGTGCTATTTTAACAGGTT-TACCCACGGTTCTTCCACACAGGCGTGTCGC
1 ACGCCCGTGCTAATTTAACAGGTTCGA-CCACGGGTCTTCCACACAGGCATGTCGA
112388720 ACGCCCGTG
1 ACGCCCGTG
112388729 TTTTTTTGGC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 1 0.02
55 52 0.98
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.26
Consensus pattern (55 bp):
ACGCCCGTGCTAATTTAACAGGTTCGACCACGGGTCTTCCACACAGGCATGTCGA
Found at i:112394529 original size:8 final size:8
Alignment explanation
Indices: 112394512--112394542 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
112394502 TCATGTTCAT
*
112394512 CAACACAA
1 CAACAAAA
112394520 CAACAAAA
1 CAACAAAA
112394528 CAACAAAA
1 CAACAAAA
112394536 CAACAAA
1 CAACAAA
112394543 TAAGATAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (8 bp):
CAACAAAA
Found at i:112395877 original size:18 final size:17
Alignment explanation
Indices: 112395854--112395896 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
112395844 TAAAAATAAC
* *
112395854 TTTTCATTTTTTTTCTAA
1 TTTTCATATATTTTC-AA
*
112395872 TTTTCACATATTTTCAA
1 TTTTCATATATTTTCAA
112395889 TTTTCATA
1 TTTTCATA
112395897 ATCACTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTCATATATTTTCAA
Found at i:112401975 original size:16 final size:17
Alignment explanation
Indices: 112401954--112401991 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
112401944 CCTACCAAAA
*
112401954 ATTTTGAAAAATAA-TT
1 ATTTTGAAAAACAATTT
*
112401970 ATTTTGTAAAACAATTT
1 ATTTTGAAAAACAATTT
112401987 ATTTT
1 ATTTT
112401992 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (17 bp):
ATTTTGAAAAACAATTT
Found at i:112403250 original size:29 final size:29
Alignment explanation
Indices: 112403217--112403281 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
112403207 AAGCTAAAAG
112403217 TCGGATTATTTATTTGTAGATCAATGTTT
1 TCGGATTATTTATTTGTAGATCAATGTTT
112403246 TCGGATTATTTATTTGTAGATCAATGTTT
1 TCGGATTATTTATTTGTAGATCAATGTTT
*
112403275 TCTGATT
1 TCGGATT
112403282 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.23, C:0.08, G:0.17, T:0.52
Consensus pattern (29 bp):
TCGGATTATTTATTTGTAGATCAATGTTT
Found at i:112405945 original size:21 final size:21
Alignment explanation
Indices: 112405891--112405946 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
112405881 GAAACAGAGC
*
112405891 ACACGCCCGTGTAGATGGGCG
1 ACACGCCCGTGTGGATGGGCG
112405912 ACACGCCCGTGTGGATGGGCG
1 ACACGCCCGTGTGGATGGGCG
112405933 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
112405947 TCATTAAGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.30, G:0.39, T:0.14
Consensus pattern (21 bp):
ACACGCCCGTGTGGATGGGCG
Found at i:112409052 original size:29 final size:29
Alignment explanation
Indices: 112408977--112409074 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
112408967 CACGAATTCC
*
112408977 TTTAAC-AAGAATGGCCACAAAAGCATCCT
1 TTTAACTAAG-ATAGCCACAAAAGCATCCT
* * *
112409006 TTTAACAAAGGTAGCCACAAAGGCATCCT
1 TTTAACTAAGATAGCCACAAAAGCATCCT
* * *
112409035 TTTAACTGAGATCA-CCACAAAAGCATTCA
1 TTTAACTAAGAT-AGCCACAAAAGCATCCT
112409064 TTTAACTAAGA
1 TTTAACTAAGA
112409075 AAACCAAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 53 0.93
30 4 0.07
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.23
Consensus pattern (29 bp):
TTTAACTAAGATAGCCACAAAAGCATCCT
Found at i:112409080 original size:29 final size:29
Alignment explanation
Indices: 112408991--112409085 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
112408981 ACAAGAATGG
* * *
112408991 CCACAAAAGCATCCTTTTAACAAAGGTAG
1 CCACAAAAGCATCCTTTTAACTAAGATAA
* * *
112409020 CCACAAAGGCATCCTTTTAACTGAGATCA
1 CCACAAAAGCATCCTTTTAACTAAGATAA
* * *
112409049 CCACAAAAGCATTCATTTAACTAAGAAAA
1 CCACAAAAGCATCCTTTTAACTAAGATAA
112409078 CCA-AAAAG
1 CCACAAAAG
112409086 ACGTTTGTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 5 0.09
29 49 0.91
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (29 bp):
CCACAAAAGCATCCTTTTAACTAAGATAA
Found at i:112411372 original size:21 final size:21
Alignment explanation
Indices: 112411347--112411397 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
112411337 GTTCCAACTG
112411347 GTATCGGTAGAACCCAACAGA
1 GTATCGGTAGAACCCAACAGA
112411368 GTATCGGTAGAACCCAACAGA
1 GTATCGGTAGAACCCAACAGA
112411389 GTATCGGTA
1 GTATCGGTA
112411398 AAAGTGTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (21 bp):
GTATCGGTAGAACCCAACAGA
Found at i:112411612 original size:21 final size:21
Alignment explanation
Indices: 112411567--112411612 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
112411557 TAGAAGTCTA
* *
112411567 AGTTGTATCGGTAGAACCCGG
1 AGTTGTATCAGTAGAACCCGC
112411588 AGTTGTATCAGTAGAACTCC-C
1 AGTTGTATCAGTAGAAC-CCGC
112411609 AGTT
1 AGTT
112411613 CTACTGCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (21 bp):
AGTTGTATCAGTAGAACCCGC
Found at i:112413448 original size:48 final size:48
Alignment explanation
Indices: 112413377--112413472 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
112413367 AAGGAAATAT
* *
112413377 TTGAAAAGAGTAAGTCAATATGACTCTGTATGTGATATATGTTATGTA
1 TTGAAAAGAGTAAGTCAATATGACTCTGTAGGTGATAAATGTTATGTA
* * *
112413425 TTGAAAATAGTAAGTTAATATGACTCTGTAGGTGTTAAATGTTATGTA
1 TTGAAAAGAGTAAGTCAATATGACTCTGTAGGTGATAAATGTTATGTA
112413473 CAATTGTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (48 bp):
TTGAAAAGAGTAAGTCAATATGACTCTGTAGGTGATAAATGTTATGTA
Found at i:112413738 original size:26 final size:26
Alignment explanation
Indices: 112413708--112413762 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
112413698 TCTCTTTGTG
* * *
112413708 TAAGGATGAAAGTATCCGCCCGATGT
1 TAAGGAAGAAAGTATACGCCCGATAT
112413734 TAAGGAAGAAAGTATACGCCCGATAT
1 TAAGGAAGAAAGTATACGCCCGATAT
112413760 TAA
1 TAA
112413763 AATTTGCCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (26 bp):
TAAGGAAGAAAGTATACGCCCGATAT
Found at i:112414233 original size:19 final size:19
Alignment explanation
Indices: 112414209--112414265 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
112414199 GTTTAATATT
112414209 AAATTAATAAAATATTTAA
1 AAATTAATAAAATATTTAA
* *
112414228 AAATTAATATTAAATCTTATTA
1 AAATTAATA--AAATATT-TAA
112414250 AAA-TAATAAAATATTT
1 AAATTAATAAAATATTT
112414266 TTCTACAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
21 11 0.34
22 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTAATAAAATATTTAA
Found at i:112421174 original size:10 final size:10
Alignment explanation
Indices: 112421159--112421194 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
112421149 AATTTTAGCT
112421159 TTTATCTTTA
1 TTTATCTTTA
*
112421169 TTTATCTCTA
1 TTTATCTTTA
112421179 TTTATCTTTA
1 TTTATCTTTA
112421189 TTTATC
1 TTTATC
112421195 CTTCTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:112421206 original size:20 final size:19
Alignment explanation
Indices: 112421157--112421207 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
112421147 TTAATTTTAG
112421157 CTTTTATCTTTATTTATCT
1 CTTTTATCTTTATTTATCT
112421176 CTATTTATCTTTATTTATCCTT
1 CT-TTTATCTTTATTTAT-C-T
112421198 CTTTT-TCTTT
1 CTTTTATCTTT
112421208 TAGAATTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.07
20 20 0.69
21 4 0.14
22 3 0.10
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.69
Consensus pattern (19 bp):
CTTTTATCTTTATTTATCT
Found at i:112422711 original size:42 final size:42
Alignment explanation
Indices: 112422652--112422738 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
112422642 GGTTTGTCTT
*
112422652 AGTATGAAACCTCAAGGCGTAACTGAGGATCAAATCAAATTG
1 AGTATGAAACCTCAAGGCATAACTGAGGATCAAATCAAATTG
112422694 AGTATGAAACCTCAAGGCATAACTGAGGATCAAATCAAATTG
1 AGTATGAAACCTCAAGGCATAACTGAGGATCAAATCAAATTG
112422736 AGT
1 AGT
112422739 GCTTTCCCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (42 bp):
AGTATGAAACCTCAAGGCATAACTGAGGATCAAATCAAATTG
Found at i:112425379 original size:18 final size:17
Alignment explanation
Indices: 112425339--112425379 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
112425329 CACTTTTTCA
*
112425339 ATCATCCCTCATCCTTC
1 ATCATCCCTCATCATTC
112425356 ATTCATCCCTCACTCATTC
1 A-TCATCCCTCA-TCATTC
112425375 ATCAT
1 ATCAT
112425380 TCTCTCCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.67
19 6 0.29
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (17 bp):
ATCATCCCTCATCATTC
Found at i:112426634 original size:20 final size:19
Alignment explanation
Indices: 112426609--112426657 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
112426599 GGAGGTAAAT
112426609 TTTTATTTTTATTTATTTTA
1 TTTTATTTTTA-TTATTTTA
*
112426629 TTTTATTATTTATTATTTTG
1 TTTTATT-TTTATTATTTTA
*
112426649 TTTTGTTTT
1 TTTTATTTT
112426658 GTTTTGTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.77
21 4 0.15
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTTATTTTTATTATTTTA
Found at i:112428655 original size:10 final size:10
Alignment explanation
Indices: 112428640--112428698 Score: 91
Period size: 10 Copynumber: 5.9 Consensus size: 10
112428630 AATTTTAACT
112428640 TTTATCTTTA
1 TTTATCTTTA
*
112428650 TTTATCTCTA
1 TTTATCTTTA
112428660 TTTATCTTTA
1 TTTATCTTTA
*
112428670 TTTATCCTTA
1 TTTATCTTTA
*
112428680 TTTATCCTTA
1 TTTATCTTTA
112428690 TTTATCTTT
1 TTTATCTTT
112428699 TAAAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 45 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:112430096 original size:25 final size:25
Alignment explanation
Indices: 112430034--112430099 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
112430024 ATACATGTAT
* *
112430034 GCTCATTCGAGCTATGAATCGGTAT
1 GCTCATACGAGCTATGAATCGGTAA
112430059 GCTC-TCACGAGCTATGAATCGGTAA
1 GCTCAT-ACGAGCTATGAATCGGTAA
*
112430084 GCTCATACAAGCTATG
1 GCTCATACGAGCTATG
112430100 GTGTGTCTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTATGAATCGGTAA
Found at i:112436922 original size:29 final size:27
Alignment explanation
Indices: 112436872--112436934 Score: 63
Period size: 29 Copynumber: 2.3 Consensus size: 27
112436862 TTATTGTATA
*
112436872 TTCATTTTGGTTACTCACTTTAGTATATT
1 TTCATTTTGGTCACTCACTTTA-TAT-TT
* * *
112436901 TTCATTTTTGTCACTTATTTTATATTT
1 TTCATTTTGGTCACTCACTTTATATTT
*
112436928 TTAATTT
1 TTCATTT
112436935 GTCTTTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 8 0.28
28 3 0.10
29 18 0.62
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (27 bp):
TTCATTTTGGTCACTCACTTTATATTT
Found at i:112438162 original size:39 final size:39
Alignment explanation
Indices: 112438071--112438161 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
112438061 AAAATATATA
* * * *
112438071 TTTAATACAATAAAATATATATTGTATTTATTTATGTTT
1 TTTAATATAATAAAATATATATTATATTTATGTATATTT
*
112438110 TTTAATATAATAAAATATTTATTATATTTATGGTAGTATTTT
1 TTTAATATAATAAAATATATATTATATTTAT-GTA-TA-TTT
112438152 TTTAATATAA
1 TTTAATATAA
112438162 ATACTTTTCG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
39 28 0.64
40 2 0.05
41 1 0.02
42 13 0.30
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (39 bp):
TTTAATATAATAAAATATATATTATATTTATGTATATTT
Found at i:112438648 original size:14 final size:13
Alignment explanation
Indices: 112438616--112438654 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
112438606 TTTTATTAGG
* *
112438616 TTTAAATTTTAAT
1 TTTAATTTTTAAC
112438629 TTTAATTTTTATAC
1 TTTAATTTTTA-AC
112438643 TTTAATTTTTAA
1 TTTAATTTTTAA
112438655 TATAAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAATTTTTAAC
Found at i:112440918 original size:21 final size:20
Alignment explanation
Indices: 112440881--112440932 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
112440871 TGTTTTCCTA
*
112440881 TTCTTCCTTTTTTTTATTTT
1 TTCTTCTTTTTTTTTATTTT
112440901 TT-TTCATTTTTCTTTTATTTT
1 TTCTTC-TTTTT-TTTTATTTT
112440922 TTCTTCTTTTT
1 TTCTTCTTTTT
112440933 GCAATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 6 0.21
21 16 0.57
22 3 0.11
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (20 bp):
TTCTTCTTTTTTTTTATTTT
Found at i:112440926 original size:12 final size:10
Alignment explanation
Indices: 112440888--112440923 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
112440878 CTATTCTTCC
112440888 TTTTTTTTAT
1 TTTTTTTTAT
*
112440898 TTTTTTTCAT
1 TTTTTTTTAT
112440908 TTTTCTTTTAT
1 TTTT-TTTTAT
112440919 TTTTT
1 TTTTT
112440924 CTTCTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:112449312 original size:15 final size:16
Alignment explanation
Indices: 112449289--112449329 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
112449279 TTCTTCCTTC
112449289 TTCTATCTTTTATCTTT
1 TTCT-TCTTTTATCTTT
*
112449306 TT-TTCTTTTATTTTT
1 TTCTTCTTTTATCTTT
112449321 TTCTTCTTT
1 TTCTTCTTT
112449330 CTGCAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 13 0.59
16 7 0.32
17 2 0.09
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (16 bp):
TTCTTCTTTTATCTTT
Found at i:112452018 original size:46 final size:46
Alignment explanation
Indices: 112451880--112452191 Score: 276
Period size: 46 Copynumber: 6.7 Consensus size: 46
112451870 TGGGTAAAGT
* * * * *
112451880 GCCGATGCCATGTCTCAGACATAGTCTTACACTAGCTCACATCTC-AA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAG
** * * * *
112451927 ATCAATGCCATGTCCCAGGCATGGTCTTACACTGAC-TATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTCTCG-AG
*
112451975 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
112452021 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
* * *
112452067 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAG
* * * * * *
112452113 GCCGATGCCATGTCCAAGACATGGTCTTAAATTGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGT-CTCGAG
* *
112452161 GCCGATACATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
112452192 AGCCAACAAA
Statistics
Matches: 222, Mismatches: 34, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.00
46 120 0.54
47 75 0.34
48 24 0.11
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
Found at i:112459882 original size:32 final size:32
Alignment explanation
Indices: 112459841--112459905 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
112459831 TGCTTCCATT
112459841 TTCGGTGGAGAGAAGATGAAGAAAAGATGAGA
1 TTCGGTGGAGAGAAGATGAAGAAAAGATGAGA
112459873 TTCGGTGGAGAGAAGATGAAGAAAAGATGAGA
1 TTCGGTGGAGAGAAGATGAAGAAAAGATGAGA
112459905 T
1 T
112459906 CTTTCTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.37, T:0.17
Consensus pattern (32 bp):
TTCGGTGGAGAGAAGATGAAGAAAAGATGAGA
Found at i:112461123 original size:20 final size:21
Alignment explanation
Indices: 112461098--112461136 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
112461088 TCCTTAAAAT
*
112461098 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCATGTGGA
112461118 AGGGCAACACGCCCATGTG
1 AGGGCAACACGCCCATGTG
112461137 ACCAACTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.31, G:0.36, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:112467344 original size:356 final size:354
Alignment explanation
Indices: 112466682--112467398 Score: 1125
Period size: 356 Copynumber: 2.0 Consensus size: 354
112466672 TGGGCATTAA
* * * *
112466682 ATGTCCATTGTGGTGTGTTGGGATGACCGAAGATGGTGTGTAGCGAACGAAAATAGGAATATTGC
1 ATGTTCATAGTGGTGTGTTGGGATGACCAAAGATGATGTGTAGCGAACGAAAATAGGAATATTGC
*
112466747 ATCTGAATCTGATCTGAACCATATTTGAATTGAAATCGTATATATATACATATATGTAACTCATC
66 ATCTGAATCTGATCTGAACAATATTTGAATTGAAATCGTATATATATACATATATGTAACTCATC
* * * *
112466812 TGCTCTGAATCTGGACTGAAATTACTCATATATCAACCGAACCTTTGAATTTGGAATTTCTTTAT
131 TACTCTGAATCTAGACTGAAATTACTCATATATCAACCGAACCTCTAAATTTGGAATTTCTTTAT
* * *
112466877 AAGCGAACATTATTGAATTTTAACTCCTTTTACGCATTAAGTTTACAACTCACTTTGTTATTGAT
196 AAGCAAACATTATTGAA-TTTAACTACTTTTACGCATTAAGTTCACAACTCACTTTGTTATTGAT
* * * *
112466942 TGGATTTTAGGTGATCCCAATCTTGAGCGGGTCAGTGTCGCGGAAGCTCAGTTAAGCTTTTCTTT
260 TGGATTTCAGGTGATCCCAATCTTGAGCGGGTCAATGTCGCGGAAGCTCAATCAAGCTTTTC-TT
112467007 TTTTCCTTTTAAGCATTACTACCAGGGATTG
324 TTTTCCTTTTAAGCATTACTACCAGGGATTG
*
112467038 ATGTTCATAGTGGTGTGTTGGGATGGA-CAAAGATGATGTGTAGC-AGACGGAAATAGGAATATT
1 ATGTTCATAGTGGTGTGTTGGGAT-GACCAAAGATGATGTGTAGCGA-ACGAAAATAGGAATATT
*
112467101 GCATCTGAATTTGATCTGAACAATATTTGAATTGAAATCGTATATATATACATATATGTAACTCA
64 GCATCTGAATCTGATCTGAACAATATTTGAATTGAAATCGTATATATATACATATATGTAACTCA
* *
112467166 TCTACTCTGAATCTAGACTGAAATTACTCTTATATCAACCGAATCTCTAAATTTGGAATTTCTTT
129 TCTACTCTGAATCTAGACTGAAATTACTCATATATCAACCGAACCTCTAAATTTGGAATTTCTTT
* * *
112467231 ATGAGCAAACATTATTGAA-TTAGACTACTTTTATGCATTGAGTTCACAACTCACTTTGTTATTG
194 ATAAGCAAACATTATTGAATTTA-ACTACTTTTACGCATTAAGTTCACAACTCACTTTGTTATTG
*
112467295 ATTGGATTTCAGGTGGTCCCTAATCTTGAGCGGGTCAATGTCGCGGAAGCTCAATCAAGCTTTTC
258 ATTGGATTTCAGGTGATCCC-AATCTTGAGCGGGTCAATGTCGCGGAAGCTCAATCAAGCTTTTC
* *
112467360 TTTTTTGCTTTTAAGCATTACTACTAGGGATTG
322 TTTTTTCCTTTTAAGCATTACTACCAGGGATTG
112467393 ATGTTC
1 ATGTTC
112467399 TATGATGTTA
Statistics
Matches: 331, Mismatches: 26, Indels: 9
0.90 0.07 0.02
Matches are distributed among these distances:
354 3 0.01
355 93 0.28
356 233 0.70
357 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (354 bp):
ATGTTCATAGTGGTGTGTTGGGATGACCAAAGATGATGTGTAGCGAACGAAAATAGGAATATTGC
ATCTGAATCTGATCTGAACAATATTTGAATTGAAATCGTATATATATACATATATGTAACTCATC
TACTCTGAATCTAGACTGAAATTACTCATATATCAACCGAACCTCTAAATTTGGAATTTCTTTAT
AAGCAAACATTATTGAATTTAACTACTTTTACGCATTAAGTTCACAACTCACTTTGTTATTGATT
GGATTTCAGGTGATCCCAATCTTGAGCGGGTCAATGTCGCGGAAGCTCAATCAAGCTTTTCTTTT
TTCCTTTTAAGCATTACTACCAGGGATTG
Found at i:112476437 original size:30 final size:30
Alignment explanation
Indices: 112476401--112476501 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
112476391 GACAAGATTG
* * *
112476401 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
112476431 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
112476459 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
112476488 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
112476502 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:112476513 original size:29 final size:28
Alignment explanation
Indices: 112476430--112476505 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
112476420 AAAATTGTAC
* *
112476430 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
112476458 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
112476487 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
112476506 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:112478711 original size:14 final size:14
Alignment explanation
Indices: 112478692--112478721 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
112478682 GCTTTCGTAC
*
112478692 TTTAATTTGTAATA
1 TTTAATTTATAATA
112478706 TTTAATTTATAATA
1 TTTAATTTATAATA
112478720 TT
1 TT
112478722 ATTTTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTAATTTATAATA
Found at i:112484575 original size:13 final size:14
Alignment explanation
Indices: 112484559--112484588 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
112484549 TATTAAAAAA
112484559 ATTTATTA-TTTGT
1 ATTTATTAGTTTGT
112484572 ATTTATTAGTTTGT
1 ATTTATTAGTTTGT
112484586 ATT
1 ATT
112484589 AAAATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (14 bp):
ATTTATTAGTTTGT
Found at i:112484682 original size:29 final size:28
Alignment explanation
Indices: 112484623--112484688 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
112484613 AATATTTATA
**
112484623 TATTTTGTATATTTAGAATTTAATTTTTC
1 TATTTT-TATATTTAGAATTTAATTCATC
*
112484652 TATTTTTATCTTTAAGAATTTAATTCATC
1 TATTTTTATATTT-AGAATTTAATTCATC
*
112484681 TACTTTTA
1 TATTTTTA
112484689 GATATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.59
Consensus pattern (28 bp):
TATTTTTATATTTAGAATTTAATTCATC
Found at i:112487763 original size:14 final size:14
Alignment explanation
Indices: 112487746--112487777 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
112487736 TTAACTATAA
112487746 TATTTCTATACCCT
1 TATTTCTATACCCT
112487760 TATTTCTATACCCT
1 TATTTCTATACCCT
112487774 TATT
1 TATT
112487778 AACATCTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTTCTATACCCT
Found at i:112488523 original size:18 final size:17
Alignment explanation
Indices: 112488491--112488531 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
112488481 TTGAAACGGG
112488491 TTTTAAATATTTTAATA
1 TTTTAAATATTTTAATA
* *
112488508 TTTTAACATTTTTTAATT
1 TTTTAA-ATATTTTAATA
112488526 TTTTAA
1 TTTTAA
112488532 TTAATCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTAAATATTTTAATA
Found at i:112497166 original size:3 final size:3
Alignment explanation
Indices: 112497151--112497267 Score: 209
Period size: 3 Copynumber: 39.0 Consensus size: 3
112497141 GTTATTTTCA
112497151 TAT TAT TGA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
112497196 TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
112497244 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
112497268 GTGCTTTTGT
Statistics
Matches: 110, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
2 1 0.01
3 108 0.98
4 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:112497687 original size:20 final size:20
Alignment explanation
Indices: 112497642--112497678 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
112497632 ATTAACCGTA
*
112497642 GTATATGTTTTATTATATAC
1 GTATATATTTTATTATATAC
112497662 GTATATATTTTA-TATAT
1 GTATATATTTTATTATAT
112497679 TATGTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (20 bp):
GTATATATTTTATTATATAC
Found at i:112497914 original size:22 final size:23
Alignment explanation
Indices: 112497852--112497915 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
112497842 ATTATATGTG
* *
112497852 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AATATGCTTTAA
112497876 TATTATATTAT-ATATATGCTTT-A
1 TA-TATATTATGA-ATATGCTTTAA
112497899 TATATATTATGAATATG
1 TATATATTATGAATATG
112497916 TATTTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 13 0.37
23 5 0.14
24 9 0.26
25 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAATATGCTTTAA
Found at i:112501204 original size:109 final size:109
Alignment explanation
Indices: 112501073--112501274 Score: 352
Period size: 109 Copynumber: 1.9 Consensus size: 109
112501063 TTGAGTCTTA
112501073 GCCTTCCCCTTTTGCCTTGCTTGGATCGTCTTCTTTCCTTGAGTAACTGTGAGTGCACTCTCTCC
1 GCCTTCCCCTTTTGCCTTGCTTGGATCGTCTTCTTTCCTTGAGTAACTGTGAGTGCACTCTCTCC
*
112501138 CATCTCCAGTATGAGTATAGCCTCCTTCTGAAGGTTGCATTTTG
66 CATATCCAGTATGAGTATAGCCTCCTTCTGAAGGTTGCATTTTG
* *
112501182 GCCTTTCCCTTTTG-CTTGGCTTGGATCGTCTTCTTTCCTTGAGTAACTGTGAGTGCACTCTCTT
1 GCCTTCCCCTTTTGCCTT-GCTTGGATCGTCTTCTTTCCTTGAGTAACTGTGAGTGCACTCTCTC
*
112501246 CCATATCCAGTATGAGTCTAGCCTCCTTC
65 CCATATCCAGTATGAGTATAGCCTCCTTC
112501275 CAATCACACA
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
108 3 0.03
109 85 0.97
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (109 bp):
GCCTTCCCCTTTTGCCTTGCTTGGATCGTCTTCTTTCCTTGAGTAACTGTGAGTGCACTCTCTCC
CATATCCAGTATGAGTATAGCCTCCTTCTGAAGGTTGCATTTTG
Found at i:112505996 original size:27 final size:27
Alignment explanation
Indices: 112505965--112506026 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
112505955 TTTTACTGAA
*
112505965 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATGACCATT
* *
112505992 TTACCCCT-AGATGCAAAATGACCGTT
1 ATACCCCTAAGATGCAAAATGACCATT
112506018 ATACCCCTA
1 ATACCCCTA
112506027 TGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 3 0.10
26 19 0.66
27 7 0.24
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATGACCATT
Found at i:112506351 original size:19 final size:20
Alignment explanation
Indices: 112506329--112506373 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
112506319 CTGTTTTATT
*
112506329 ATGGGCC-AGCTGTATTAAA
1 ATGGGCCTAACTGTATTAAA
* *
112506348 ATGGGCCTAACTGTGTTAAT
1 ATGGGCCTAACTGTATTAAA
112506368 ATGGGC
1 ATGGGC
112506374 AAGACCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
ATGGGCCTAACTGTATTAAA
Found at i:112506503 original size:28 final size:28
Alignment explanation
Indices: 112506402--112506515 Score: 81
Period size: 28 Copynumber: 3.9 Consensus size: 28
112506392 ACTTGTAATA
* * *
112506402 GGGCTACGGCCCAGACTGATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
* *
112506430 GGGCT-AGGCCCAGTATGCTCTGATATTG-TAAT
1 GGGCTAAGGCCCAG-A---T-TAATACTGAT-AT
*
112506462 AGGGCTATGGCCCAGATTAATACTGATAT
1 -GGGCTAAGGCCCAGATTAATACTGATAT
*
112506491 GGGCTAAGGCCCAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAATACTGAT
112506516 TTCTGAATAA
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
27 17 0.25
28 19 0.28
29 8 0.12
30 2 0.03
31 1 0.01
32 9 0.13
33 6 0.09
34 7 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATACTGATAT
Found at i:112506537 original size:62 final size:61
Alignment explanation
Indices: 112506394--112506538 Score: 161
Period size: 61 Copynumber: 2.4 Consensus size: 61
112506384 ATATCTCGAC
* * * * *
112506394 TTGTAATAGGGCTACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTCTGATA
1 TTGTAATAAGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
* *
112506455 TTGTAATAGGGCTATGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACACTGAT-
1 TTGTAATAAGGCTATGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACACTGATA
*
112506516 TTCTGAATAAGGCT-TAGGCCCAG
1 TTGT-AATAAGGCTAT-GGCCCAG
112506539 TAAAGCTTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
61 43 0.59
62 30 0.41
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (61 bp):
TTGTAATAAGGCTATGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACACTGATA
Found at i:112507841 original size:19 final size:20
Alignment explanation
Indices: 112507798--112507843 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
112507788 GTTGGGCCTT
112507798 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
112507818 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
112507837 GCCCATA
1 GCCCATA
112507844 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:112507902 original size:22 final size:22
Alignment explanation
Indices: 112507877--112507918 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
112507867 TGCATGATAA
*
112507877 CTCCATCCAACCCTGCACTTGC
1 CTCCATCCAACCCTACACTTGC
* *
112507899 CTCCGTCCATCCCTACACTT
1 CTCCATCCAACCCTACACTT
112507919 CCTGTGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.50, G:0.07, T:0.26
Consensus pattern (22 bp):
CTCCATCCAACCCTACACTTGC
Found at i:112508091 original size:34 final size:34
Alignment explanation
Indices: 112508048--112508116 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
112508038 ACGAGCTCTT
112508048 CCTCCATAACAAAACCCAACCCCATGCAATATGA
1 CCTCCATAACAAAACCCAACCCCATGCAATATGA
*
112508082 CCTCCATAACAAAACCCAACCCCATGCAGTATGA
1 CCTCCATAACAAAACCCAACCCCATGCAATATGA
112508116 C
1 C
112508117 ATGTATACAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.39, G:0.07, T:0.14
Consensus pattern (34 bp):
CCTCCATAACAAAACCCAACCCCATGCAATATGA
Found at i:112512528 original size:41 final size:40
Alignment explanation
Indices: 112512457--112512614 Score: 176
Period size: 41 Copynumber: 3.9 Consensus size: 40
112512447 TACTCGATAC
112512457 CTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTATAAT
1 CTCGCACACTAAGTGCC-ATACATAGCCGAAGCTATT-TAAT
* * * * *
112512499 CTCGTACACTAAGTGCCTTACATAGCCGAAGTTATCTCAGT
1 CTCGCACACTAAGTGCCATACATAGCCGAAGCTAT-TTAAT
* *
112512540 CTCGCACACTAAGTGTCATATATAGCCGAAGCTATTCTGAA-
1 CTCGCACACTAAGTGCCATACATAGCCGAAGCTATT-T-AAT
* *
112512581 -TCGCACACTAAGTGCCATATATAGCTGAAGCTAT
1 CTCGCACACTAAGTGCCATACATAGCCGAAGCTAT
112512615 CTCGTATTAC
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
40 33 0.33
41 48 0.48
42 18 0.18
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
CTCGCACACTAAGTGCCATACATAGCCGAAGCTATTTAAT
Found at i:112512600 original size:40 final size:40
Alignment explanation
Indices: 112512458--112512643 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
112512448 ACTCGATACC
* *
112512458 TCGCACACTAAGTGCCAATACATAGCCGAAGCTATTAT-AA
1 TCGCACACTAAGTGCC-ATATATAGCCGAAGCTATTCTGAA
* * * * * **
112512498 TCTCGTACACTAAGTGCCTTACATAGCCGAAGTTATCTCAGTC
1 --TCGCACACTAAGTGCCATATATAGCCGAAGCTAT-TCTGAA
*
112512541 TCGCACACTAAGTGTCATATATAGCCGAAGCTATTCTGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATTCTGAA
* *
112512581 TCGCACACTAAGTGCCATATATAGCTGAAGCTA-TCTCGTA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATTCT-GAA
**
112512621 TTACACACTAAGTGCCATATATA
1 TCGCACACTAAGTGCCATATATA
112512644 TATCCGAATC
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 57 0.47
41 45 0.37
42 16 0.13
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATTCTGAA
Found at i:112512605 original size:81 final size:80
Alignment explanation
Indices: 112512457--112512643 Score: 232
Period size: 81 Copynumber: 2.3 Consensus size: 80
112512447 TACTCGATAC
* * *
112512457 CTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTATAATCTCGTACACTAAGTGCCTTACAT
1 CTCGCACACTAAGTGCC-ATATATAGCCGAAGCTATTATAA-CTCGCACACTAAGTGCCATACAT
*
112512522 AGCCGAAGTTATCTCAGT
64 AGCCGAAGCTATCTC-GT
* * *
112512540 CTCGCACACTAAGTGTCATATATAGCCGAAGCTATTCTGAA-TCGCACACTAAGTGCCATATATA
1 CTCGCACACTAAGTGCCATATATAGCCGAAGCTATTAT-AACTCGCACACTAAGTGCCATACATA
*
112512604 GCTGAAGCTATCTCGT
65 GCCGAAGCTATCTCGT
* **
112512620 ATTACACACTAAGTGCCATATATA
1 CTCGCACACTAAGTGCCATATATA
112512644 TATCCGAATC
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 22 0.24
81 32 0.35
82 19 0.21
83 18 0.20
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (80 bp):
CTCGCACACTAAGTGCCATATATAGCCGAAGCTATTATAACTCGCACACTAAGTGCCATACATAG
CCGAAGCTATCTCGT
Found at i:112516240 original size:11 final size:12
Alignment explanation
Indices: 112516216--112516246 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
112516206 TTCTCCCCTT
112516216 TTTTTCTTTCTC
1 TTTTTCTTTCTC
112516228 TTTTTCTTT-TC
1 TTTTTCTTTCTC
112516239 TTTTTCTT
1 TTTTTCTT
112516247 CCTTCTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:112519315 original size:27 final size:28
Alignment explanation
Indices: 112519258--112519335 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
112519248 GCAATCAAAT
* *
112519258 ATGGCACTCAGTGTAAGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
112519286 ATGGCACTTAGTGT-CGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
112519313 ATGACACTTAGTGTACGAAATAT
1 ATGGCACTTAGTGTACGAAATAT
112519336 CAAATGATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Done.